Using elemental chemostratigraphy on Mid-Late Frasnian platform-top successions from the Lennard Shelf outcrops, Canning Basin, Western Australia.

High-resolution chronostratigraphic correlation using elemental chemostratigraphy in platform carbonates is typically difficult to achieve. Here, elemental chemostratigraphy is used to correlate between two platform-top, carbonate-dominated field sections from the narrow Lennard Shelf that existed on the NE margin of the Canning Basin, Western Australia, during the mid–late Frasnian. The correlation, constrained by magnetic polarity reversals and physical ground truthing, is based on recognition of distinctive cyclical ‘‘stacking patterns’’ defined by changes in concentrations of the trace element zirconium (Zr). Zr concentrations are controlled by the amount of the heavy mineral zircon in the sediments, which is derived from a terrigenous source and is diagenetically very stable. The stacking patterns in the lower part of the study sections display gradually upward-increasing values of Zr to a maximum, followed by an almost immediate fall to a minimum. In the upper part of the study interval, the cycles are more symmetrical, with both gradually increasing and decreasing portions. The point at which the change in Zr stacking pattern occurs in the two sections is synchronous and occurs in association with a supersequence maximum flooding surface. The correlation based on maximum and minimum Zr values throughout the two sections is demonstrated to be chronostratigraphic by comparison with correlations based upon paleomagnetism and physical ground truthing. When element ratios commonly used as provenance and paleoclimate proxies are plotted, the variations between closely spaced samples are greater than any systematic variations throughout the study intervals. Therefore, no isochemical chemozones can be defined, implying that during deposition of the study intervals, there were no long-lived changes in sediment provenance or paleoclimate that the elemental chemistry can detect. The work presented here shows that the standard approach of defining isochemical chemozones for chemostratigraphic correlation is not always appropriate. However, an approach using cyclical changes in elemental variables for chemostratigraphic correlation between two closely spaced sections is chronostratigraphically valid. The greater challenge is in application of the same approach to more widely spaced sections, potentially in different facies of a carbonate setting

High-Resolution Late Devonian Magnetostratigraphy From the Canning Basin, Western Australia: A Re-Evaluation

Late Devonian time was a period of rapid upheaval in the Earth system, including climate change, sea level changes, widespread ocean anoxia, and the Frasnian-Famennian mass extinction; the cause(s) of these changes remain(s) uncertain. The Lennard Shelf of the Canning Basin in Western Australia contains carbonate reef sections spanning much of the Late Devonian Epoch and has been sampled for paleomagnetic analysis with studies by Hansma and colleagues in 2015 and Playton and colleagues in 2016. However, previous paleomagnetic directions were scattered and their use for magnetostratigraphy has been questioned. Here, rock magnetic data and magnetostratigraphy for a late Devonian drill-core from the Lennard Shelf were analyzed. Three magnetostratigraphic interpretations were made using different paleopoles that showed good correlation with each other and the earlier interpretations by Playton and colleagues in 2016. Additionally, the rock magnetic data revealed the samples contain various mixtures of detrital and diagenetic minerals, the former of which should be viable recorders of primary magnetic signatures. Even in samples with these detrital phases, paleomagnetic data were often noisy and produced ambiguous polarity assignments, likely due to the anomalously weak Devonian field. Because of this ambiguity and the absence of a robust paleopole, broader correlations for this critical time-period will be difficult without additional paleomagnetic data from the late Devonian Period. Expanded data for this interval could eventually shed light on the timing, causes, and rates of the Frasnian-Famennian mass extinction and other environmental shifts in the late Devonian Epoch

Integrated stratigraphic correlation of Upper Devonian platform-to-basin carbonate sequences, Lennard Shelf, Canning Basin, Western Australia: advances in carbonate margin-to-slope sequence stratigraphy and stacking patterns

High-resolution, time-significant correlations are integral to meaningful stratigraphic frameworks in depositional systems, but may be difficult to achieve using traditional sequence stratigraphic or biostratigraphic approaches alone, particularly in geologically complex settings. In steep, reefal carbonate margin-to-slope systems, such correlations are essential to unravel shelf-to-basin transitions, characterize strike variability, and develop predictive sequence stratigraphic models – concepts which are currently poorly understood in these heterogeneous settings. The Canning Basin Chronostratigraphy Project (CBCP) integrates multiple independent datasets (including biostratigraphy, magnetostratigraphy, stable isotope chemostratigraphy, and sequence stratigraphy) extracted from Upper Devonian (Frasnian and Famennian) reefal platform exposures along the Lennard Shelf, Canning Basin, Western Australia. These were used to generate a well-constrained stratigraphic framework and shelf-to-basin composite reconstruction of the carbonate system. The resultant integrated framework allows for unprecedented analysis of carbonate margin-to-slope heterogeneity, depositional architecture, and sequence stratigraphy along the Lennard Shelf. Systems tract architecture, facies partitioning, and stacking patterns of margin to lower-slope environments were assessed for six composite-scale sequences that form part of a transgressive-to-regressive supersequence and span the Frasnian-Famennian (F-F) biotic crisis. Variations are apparent in margin styles, foreslope facies proportions, dominant resedimentation processes, downslope contributing sediment factories, and vertical rock successions, related to hierarchical accommodation signals and ecological changes associated with F-F boundary. We present these results in the form of carbonate margin-to-basin sequence stratigraphic models and associations that link seismic-scale architecture to fine-scale facies heterogeneity. These models provide a predictive foundation for characterization of steep-sided flanks of reefal carbonate platform systems that is useful for both industry and academia. This study emphasizes the utility of an integrated stratigraphic approach and the insights gained from better-constrained facies and stratal architecture analysis; insights that were not achievable with traditional sequence stratigraphic or biostratigraphic techniques alone

Exome-wide analysis of rare coding variation identifies novel associations with COPD and airflow limitation in MOCS3, IFIT3 and SERPINA12.

Several regions of the genome have shown to be associated with COPD in genome-wide association studies of common variants.To determine rare and potentially functional single nucleotide polymorphisms (SNPs) associated with the risk of COPD and severity of airflow limitation.3226 current or former smokers of European ancestry with lung function measures indicative of Global Initiative for Chronic Obstructive Lung Disease (GOLD) 2 COPD or worse were genotyped using an exome array. An analysis of risk of COPD was carried out using ever smoking controls (n=4784). Associations with %predicted FEV1 were tested in cases. We followed-up signals of interest (p<10(-5)) in independent samples from a subset of the UK Biobank population and also undertook a more powerful discovery study by meta-analysing the exome array data and UK Biobank data for variants represented on both arrays.Among the associated variants were two in regions previously unreported for COPD; a low frequency non-synonymous SNP in MOCS3 (rs7269297, pdiscovery=3.08×10(-6), preplication=0.019) and a rare SNP in IFIT3, which emerged in the meta-analysis (rs140549288, pmeta=8.56×10(-6)). In the meta-analysis of % predicted FEV1 in cases, the strongest association was shown for a splice variant in a previously unreported region, SERPINA12 (rs140198372, pmeta=5.72×10(-6)). We also confirmed previously reported associations with COPD risk at MMP12, HHIP, GPR126 and CHRNA5. No associations in novel regions reached a stringent exome-wide significance threshold (p<3.7×10(-7)).This study identified several associations with the risk of COPD and severity of airflow limitation, including novel regions MOCS3, IFIT3 and SERPINA12, which warrant further study

Transcriptional profile of breast muscle in heat stressed layers is similar to that of broiler chickens at control temperature

Abstract Background In recent years, the commercial importance of changes in muscle function of broiler chickens and of the corresponding effects on meat quality has increased. Furthermore, broilers are more sensitive to heat stress during transport and at high ambient temperatures than smaller egg-laying chickens. We hypothesised that heat stress would amplify muscle damage and expression of genes that are involved in such changes and, thus, lead to the identification of pathways and networks associated with broiler muscle and meat quality traits. Broiler and layer chickens were exposed to control or high ambient temperatures to characterise differences in gene expression between the two genotypes and the two environments. Results Whole-genome expression studies in breast muscles of broiler and layer chickens were conducted before and after heat stress; 2213 differentially-expressed genes were detected based on a significant (P < 0.05) genotype × treatment interaction. This gene set was analysed with the BioLayout Express3D and Ingenuity Pathway Analysis software and relevant biological pathways and networks were identified. Genes involved in functions related to inflammatory reactions, cell death, oxidative stress and tissue damage were upregulated in control broilers compared with control and heat-stressed layers. Expression of these genes was further increased in heat-stressed broilers. Conclusions Differences in gene expression between broiler and layer chickens under control and heat stress conditions suggest that damage of breast muscles in broilers at normal ambient temperatures is similar to that in heat-stressed layers and is amplified when broilers are exposed to heat stress. The patterns of gene expression of the two genotypes under heat stress were almost the polar opposite of each other, which is consistent with the conclusion that broiler chickens were not able to cope with heat stress by dissipating their body heat. The differentially expressed gene networks and pathways were consistent with the pathological changes that are observed in the breast muscle of heat-stressed broilers

Selenium requirements based on muscle and kidney selenoprotein enzyme activity and transcript expression in the turkey poult (Meleagris gallopavo).

The current NRC selenium (Se) requirement for turkeys is 0.2 μg Se/g diet. We previously fed turkey poults a Se-deficient diet (0.005 μg Se/g) supplemented with 10 graded levels of Se (0, 0.025, 0.05, 0.1, 0.2, 0.3, 0.4, 0.5, 0.75, 1.0 μg Se/g as Na2SeO3, 5/treatment) for 4 wk, and found that the minimum dietary Se requirement was 0.3 μg Se/g based on selenoprotein enzyme activity in blood, liver, gizzard and pancreas. Because the turkey is primarily a production animal, we expanded this analysis to kidney, heart, breast and thigh. Se concentrations in Se-deficient poults were 5.0, 9.8, 33, and 15% of levels in poults fed 0.4 μg Se/g in liver, kidney, thigh and breast, respectively. Increasing Se supplementation resulted in hyperbolic response curves for all tissues; breakpoint analysis indicated minimum Se requirements of 0.34-0.36 μg Se/g based on tissue Se levels in liver, kidney and thigh. Similarly, GPX1 activity in muscle tissues and kidney responded hyperbolically to increasing dietary Se, reaching well-defined plateaus with breakpoints at 0.30-0.36 μg Se/g. Minimum Se requirements based on GPX4 activity were 0.30-0.32 μg Se/g for breast and thigh. Selenoprotein transcript expression decreased significantly in Se deficiency for only 2, 3, 5, and 6 mRNA in breast, thigh, heart, and kidney, respectively, out of 24 known avian selenoproteins. Se response curves for regulated selenoprotein transcripts were hyperbolic, and reached well-defined plateaus with breakpoints in a narrow range of 0.08-0.19 μg Se/g. No selenoprotein transcript was altered by supernutritional Se. In summary, these results clearly indicate that the NRC dietary Se requirement should be raised to 0.4 μg Se/g, at least for poults, to meet the nutritional needs of the young turkey. The Se response curve plateaus further show that limits for turkey supplementation with selenite could safely be raised to 0.5 μg Se/g diet